spatstat v1.41-1

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by Adrian Baddeley

Spatial Point Pattern Analysis, Model-Fitting, Simulation, Tests

Comprehensive toolbox for analysing spatial data, mainly Spatial Point Patterns, including multitype/marked points and spatial covariates, in any two-dimensional spatial region. Also supports three-dimensional point patterns, space-time point patterns in any number of dimensions, and point patterns on a linear network. Contains about 2000 functions for plotting spatial data, exploratory data analysis, model-fitting, simulation, spatial sampling, model diagnostics, and formal inference. Data types include point patterns, line segment patterns, spatial windows, pixel images, tessellations, and linear networks. Exploratory methods include quadrat counts, K-functions and their simulation envelopes, nearest neighbour distance and empty space statistics, Fry plots, pair correlation function, kernel smoothed intensity, relative risk estimation with cross-validated bandwidth selection, mark correlation functions, segregation indices, mark dependence diagnostics, and kernel estimates of covariate effects. Formal hypothesis tests of random pattern (chi-squared, Kolmogorov-Smirnov, Diggle-Cressie-Loosmore-Ford, Dao-Genton) and tests for covariate effects (Cox-Berman-Waller-Lawson, Kolmogorov-Smirnov) are also supported. Parametric models can be fitted to point pattern data using the functions ppm, kppm, slrm similar to glm. Types of models include Poisson, Gibbs, Cox and cluster point processes. Models may involve dependence on covariates, interpoint interaction, cluster formation and dependence on marks. Models are fitted by maximum likelihood, logistic regression, minimum contrast, and composite likelihood methods. Fitted point process models can be simulated, automatically. Formal hypothesis tests of a fitted model are supported (likelihood ratio test, analysis of deviance, Monte Carlo tests) along with basic tools for model selection (stepwise, AIC). Tools for validating the fitted model include simulation envelopes, residuals, residual plots and Q-Q plots, leverage and influence diagnostics, partial residuals, and added variable plots.

Functions in spatstat

Name Description
edges2vees List Dihedral Triples in a Graph
clickdist Interactively Measure Distance
Extract.fv Extract or Replace Subset of Function Values
panel.contour Panel Plots using Colour Image or Contour Lines
marks.psp Marks of a Line Segment Pattern
lut Lookup Tables
Gdot Multitype Nearest Neighbour Distance Function (i-to-any)
gauss.hermite Gauss-Hermite Quadrature Approximation to Expectation for Normal Distribution
linearpcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
pairdist.pp3 Pairwise distances in Three Dimensions
circdensity Density Estimation for Circular Data
exactMPLEstrauss Exact Maximum Pseudolikelihood Estimate for Stationary Strauss Process
markconnect Mark Connection Function
complement.owin Take Complement of a Window
anova.ppm ANOVA for Fitted Point Process Models
is.marked Test Whether Marks Are Present
SatPiece Piecewise Constant Saturated Pairwise Interaction Point Process Model
coords Extract or Change Coordinates of a Spatial or Spatiotemporal Point Pattern
compatible.fv Test Whether Function Objects Are Compatible
edges Extract Boundary Edges of a Window.
intensity.lpp Empirical Intensity of Point Pattern on Linear Network
cdf.test Spatial Distribution Test for Point Pattern or Point Process Model
disc Circular Window
logLik.slrm Loglikelihood of Spatial Logistic Regression
Extract.fasp Extract Subset of Function Array
Finhom Inhomogeneous Empty Space Function
Fiksel The Fiksel Interaction
Lcross Multitype L-function (cross-type)
Math.im S3 Group Generic methods for images
Poisson Poisson Point Process Model
Kdot Multitype K Function (i-to-any)
Smooth.ppp Spatial smoothing of observations at irregular points
Emark Diagnostics for random marking
Kscaled Locally Scaled K-function
Lest L-function
as.linnet.linim Extract Linear Network from Data on a Linear Network
Pairwise Generic Pairwise Interaction model
area.owin Area of a Window
HierStrauss The Hierarchical Strauss Point Process Model
Extract.quad Subset of Quadrature Scheme
as.fv Convert Data To Class fv
Jmulti Marked J Function
affine.lpp Apply Geometrical Transformations to Point Pattern on a Linear Network
applynbd Apply Function to Every Neighbourhood in a Point Pattern
Extract.ppx Extract Subset of Multidimensional Point Pattern
G3est Nearest Neighbour Distance Distribution Function of a Three-Dimensional Point Pattern
as.hyperframe.ppx Extract coordinates and marks of multidimensional point pattern
LambertW Lambert's W Function
Kmulti.inhom Inhomogeneous Marked K-Function
bei Tropical rain forest trees
Kcross.inhom Inhomogeneous Cross K Function
Extract.anylist Extract or Replace Subset of a List of Things
Kmulti Marked K-Function
affine.linnet Apply Geometrical Transformations to a Linear Network
discretise Safely Convert Point Pattern Window to Binary Mask
BadGey Hybrid Geyer Point Process Model
affine.ppp Apply Affine Transformation To Point Pattern
Triplets The Triplet Point Process Model
Jinhom Inhomogeneous J-function
Kovesi Colour Sequences with Uniform Perceptual Contrast
as.data.frame.psp Coerce Line Segment Pattern to a Data Frame
Gcross Multitype Nearest Neighbour Distance Function (i-to-j)
LennardJones The Lennard-Jones Potential
MultiStraussHard The Multitype/Hard Core Strauss Point Process Model
as.linnet.psp Convert Line Segment Pattern to Linear Network
centroid.owin Centroid of a window
MultiHard The Multitype Hard Core Point Process Model
Kinhom Inhomogeneous K-function
by.ppp Apply a Function to a Point Pattern Broken Down by Factor
as.data.frame.ppp Coerce Point Pattern to a Data Frame
bdist.tiles Distance to Boundary of Window
as.data.frame.hyperframe Coerce Hyperframe to Data Frame
Extract.splitppp Extract or Replace Sub-Patterns
affine.im Apply Affine Transformation To Pixel Image
anova.mppm ANOVA for Fitted Multiple Point Process Models
Saturated Saturated Pairwise Interaction model
Tstat Third order summary statistic
Extract.lpp Extract Subset of Point Pattern on Linear Network
areaLoss Difference of Disc Areas
demohyper Demonstration Example of Hyperframe of Spatial Data
DiggleGratton Diggle-Gratton model
Extract.tess Extract or Replace Subset of Tessellation
Fest Estimate the Empty Space Function or its Hazard Rate
bdspots Breakdown Spots in Microelectronic Materials
closepairs.pp3 Close Pairs of Points in 3 Dimensions
crossdist.lpp Pairwise distances between two point patterns on a linear network
density.ppp Kernel Smoothed Intensity of Point Pattern
gridcentres Rectangular grid of points
Ksector Sector K-function
Window Extract or Change the Window of a Spatial Object
Lcross.inhom Inhomogeneous Cross Type L Function
cbind.hyperframe Combine Hyperframes by Rows or by Columns
coef.slrm Coefficients of Fitted Spatial Logistic Regression Model
commonGrid Determine A Common Spatial Domain And Pixel Resolution
as.tess Convert Data To Tessellation
affine.psp Apply Affine Transformation To Line Segment Pattern
convexhull Convex Hull
Extract.leverage.ppm Extract Subset of Leverage Object
Geyer Geyer's Saturation Point Process Model
Ldot.inhom Inhomogeneous Multitype L Dot Function
Ord Generic Ord Interaction model
MultiStrauss The Multitype Strauss Point Process Model
anylist List of Objects
Kres Residual K Function
clickjoin Interactively join vertices on a plot
as.function.fv Convert Function Value Table to Function
closing Morphological Closing
Replace.im Reset Values in Subset of Image
StraussHard The Strauss / Hard Core Point Process Model
Jdot Multitype J Function (i-to-any)
Concom The Connected Component Process Model
Jest Estimate the J-function
Extract.linnet Extract Subset of Linear Network
Math.linim S3 Group Generic Methods for Images on a Linear Network
Linhom L-function
copper Berman-Huntington points and lines data
Smoothfun.ppp Smooth Interpolation of Marks as a Spatial Function
Kmeasure Reduced Second Moment Measure
Gfox Foxall's Distance Functions
Extract.msr Extract Subset of Signed or Vector Measure
as.mask.psp Convert Line Segment Pattern to Binary Pixel Mask
anova.lppm ANOVA for Fitted Point Process Models on Linear Network
border Border Region of a Window
as.owin Convert Data To Class owin
PairPiece The Piecewise Constant Pairwise Interaction Point Process Model
bramblecanes Hutchings' Bramble Canes data
crossdist.default Pairwise distances between two different sets of points
connected.ppp Connected components of a point pattern
allstats Calculate four standard summary functions of a point pattern.
diagnose.ppm Diagnostic Plots for Fitted Point Process Model
as.im Convert to Pixel Image
Smooth.fv Apply Smoothing to Function Values
demopat Artificial Data Point Pattern
discpartarea Area of Part of Disc
clickppp Interactively Add Points
areaGain Difference of Disc Areas
eval.fasp Evaluate Expression Involving Function Arrays
coef.mppm Coefficients of Point Process Model Fitted to Multiple Point Patterns
bdist.pixels Distance to Boundary of Window
cells Biological Cells Point Pattern
endpoints.psp Endpoints of Line Segment Pattern
bw.frac Bandwidth Selection Based on Window Geometry
contour.im Contour plot of pixel image
diameter.owin Diameter of a Window
beginner Print Introduction For Beginners
distmap Distance Map
fv.object Function Value Table
distmap.psp Distance Map of Line Segment Pattern
as.polygonal Convert a Window to a Polygonal Window
compatible.im Test Whether Pixel Images Are Compatible
data.ppm Extract Original Data from a Fitted Point Process Model
Extract.solist Extract or Replace Subset of a List of Spatial Objest
WindowOnly Extract Window of Spatial Object
Extract.hyperframe Extract or Replace Subset of Hyperframe
domain Extract the Domain of any Spatial Object
miplot Morisita Index Plot
dclf.progress Progress Plot of Test of Spatial Pattern
im.object Class of Images
chop.tess Subdivide a Window or Tessellation using a Set of Lines
circumradius Circumradius of a Window
ants Harkness-Isham ants' nests data
clmfires Castilla-La Mancha Forest Fires
OrdThresh Ord's Interaction model
mucosa Cells in Gastric Mucosa
affine.tess Apply Geometrical Transformation To Tessellation
diameter.box3 Geometrical Calculations for Three-Dimensional Box
cauchy.estpcf Fit the Neyman-Scott cluster process with Cauchy kernel
as.rectangle Window Frame
deriv.fv Calculate Derivative of Function Values
as.matrix.im Convert Pixel Image to Matrix or Array
convexhull.xy Convex Hull of Points
heather Diggle's Heather Data
dirichlet.weights Compute Quadrature Weights Based on Dirichlet Tessellation
formula.ppm Model Formulae for Gibbs Point Process Models
edge.Trans Translation Edge Correction
Extract.psp Extract Subset of Line Segment Pattern
finpines Pine saplings in Finland.
as.matrix.owin Convert Pixel Image to Matrix
dummify Convert Data to Numeric Values by Constructing Dummy Variables
beachcolours Create Colour Scheme for a Range of Numbers
as.psp Convert Data To Class psp
dirichlet Dirichlet Tessellation of Point Pattern
clusterfield Field of clusters
fvnames Abbreviations for Groups of Columns in Function Value Table
is.ppm Test Whether An Object Is A Fitted Point Process Model
Extract.ppp Extract or Replace Subset of Point Pattern
grow.rectangle Add margins to rectangle
bw.ppl Likelihood Cross Validation Bandwidth Selection for Kernel Density
angles.psp Orientation Angles of Line Segments
Hardcore The Hard Core Point Process Model
nncross.pp3 Nearest Neighbours Between Two Patterns in 3D
im.apply Apply Function Pixelwise to List of Images
compatible Test Whether Objects Are Compatible
corners Corners of a rectangle
connected Connected components
as.mask Pixel Image Approximation of a Window
as.data.frame.im Convert Pixel Image to Data Frame
dirichlet.vertices Vertices and Edges of Dirichlet Tessellation
methods.lpp Methods for Point Patterns on a Linear Network
anemones Beadlet Anemones Data
Kmark Mark-Weighted K Function
infline Infinite Straight Lines
plot.ppm plot a Fitted Point Process Model
amacrine Hughes' Amacrine Cell Data
bounding.box.xy Convex Hull of Points
funxy Spatial Function Class
fv Create a Function Value Table
anova.slrm Analysis of Deviance for Spatial Logistic Regression Models
bw.smoothppp Cross Validated Bandwidth Selection for Spatial Smoothing
clusterfit Fit Cluster or Cox Point Process Model via Minimum Contrast
convolve.im Convolution of Pixel Images
Kcom Model Compensator of K Function
density.psp Kernel Smoothing of Line Segment Pattern
hist.im Histogram of Pixel Values in an Image
hybrid.family Hybrid Interaction Family
nnorient Nearest Neighbour Orientation Distribution
linearpcfinhom Inhomogeneous Linear Pair Correlation Function
eem Exponential Energy Marks
Smooth Spatial smoothing of data
is.marked.ppp Test Whether A Point Pattern is Marked
is.im Test Whether An Object Is A Pixel Image
inside.owin Test Whether Points Are Inside A Window
fardist Farthest Distance to Boundary of Window
deltametric Delta Metric
is.ppp Test Whether An Object Is A Point Pattern
bw.diggle Cross Validated Bandwidth Selection for Kernel Density
eval.fv Evaluate Expression Involving Functions
progressreport Print Progress Reports
pppmatching.object Class of Point Matchings
increment.fv Increments of a Function
bw.scott Scott's Rule for Bandwidth Selection for Kernel Density
clickpoly Interactively Define a Polygon
identify.psp Identify Segments in a Line Segment Pattern
distcdf Distribution Function of Interpoint Distance
Iest Estimate the I-function
levelset Level Set of a Pixel Image
harmonise.im Make Pixel Images Compatible
rescale.ppp Convert Point Pattern to Another Unit of Length
as.ppp Convert Data To Class ppp
nbfires Point Patterns of New Brunswick Forest Fires
scanLRTS Likelihood Ratio Test Statistic for Scan Test
is.dppm Recognise Fitted Determinantal Point Process Models
Frame Extract or Change the Containing Rectangle of a Spatial Object
fasp.object Function Arrays for Spatial Patterns
Kest K-function
linearKinhom Inhomogeneous Linear K Function
Kcross Multitype K Function (Cross-type)
Jcross Multitype J Function (i-to-j)
marks.tess Marks of a Tessellation
clarkevans.test Clark and Evans Test
clip.infline Intersect Infinite Straight Lines with a Window
harmonise.fv Make Function Tables Compatible
diameter Diameter of an Object
layered Create List of Plotting Layers
is.owin Test Whether An Object Is A Window
pcfcross.inhom Inhomogeneous Multitype Pair Correlation Function (Cross-Type)
hamster Aherne's hamster tumour data
overlap.owin Compute Area of Overlap
markstat Summarise Marks in Every Neighbourhood in a Point Pattern
formula.fv Extract or Change the Plot Formula for a Function Value Table
crossdist.ppx Pairwise Distances Between Two Different Multi-Dimensional Point Patterns
pairorient Point Pair Orientation Distribution
midpoints.psp Midpoints of Line Segment Pattern
is.multitype.ppp Test Whether A Point Pattern is Multitype
flipxy Exchange X and Y Coordinates
mean.im Maximum, Minimum, Mean, Median, Range or Sum of Pixel Values in an Image
dclf.test Diggle-Cressie-Loosmore-Ford and Maximum Absolute Deviation Tests
is.empty Test Whether An Object Is Empty
localpcf Local pair correlation function
ganglia Beta Ganglion Cells in Cat Retina, Old Version
dmixpois Mixed Poisson Distribution
osteo Osteocyte Lacunae Data: Replicated Three-Dimensional Point Patterns
perspPoints Draw Points or Lines on a Surface Viewed in Perspective
Kmodel.ppm K Function or Pair Correlation Function of Gibbs Point Process model
pcfinhom Inhomogeneous Pair Correlation Function
nndist Nearest neighbour distances
foo Foo is Not a Variable
eval.im Evaluate Expression Involving Pixel Images
ponderosa Ponderosa Pine Tree Point Pattern
methods.pp3 Methods for three-dimensional point patterns
is.rectangle Determine Type of Window
markvario Mark Variogram
as.interact Extract Interaction Structure
npfun Dummy Function Returns Number of Points
linearKdot.inhom Inhomogeneous multitype K Function (Dot-type) for Linear Point Pattern
pairdist.ppp Pairwise distances
pixelquad Quadrature Scheme Based on Pixel Grid
intensity.ppp Empirical Intensity of Point Pattern
longleaf Longleaf Pines Point Pattern
incircle Find Largest Circle Inside Window
nncorr Nearest-Neighbour Correlation Indices of Marked Point Pattern
persp.im Perspective Plot of Pixel Image
matclust.estpcf Fit the Matern Cluster Point Process by Minimum Contrast Using Pair Correlation
idw Inverse-distance weighted smoothing of observations at irregular points
leverage.ppm Leverage Measure for Spatial Point Process Model
profilepl Profile Maximum Pseudolikelihood or AIC
clusterradius Compute or Extract Effective Range of Cluster Kernel
iplot Point and Click Interface for Displaying Spatial Data
kaplan.meier Kaplan-Meier Estimator using Histogram Data
envelope.envelope Recompute Envelopes
plot.anylist Plot a List of Things
pairdist.psp Pairwise distances between line segments
pool.envelope Pool Data from Several Envelopes
lgcp.estK Fit a Log-Gaussian Cox Point Process by Minimum Contrast
methods.rhohat Methods for Intensity Functions of Spatial Covariate
nnwhich.pp3 Nearest neighbours in three dimensions
plot.listof Plot a List of Things
residualspaper Data and Code From JRSS Discussion Paper on Residuals
plot.lpp Plot Point Pattern on Linear Network
default.rmhcontrol Set Default Control Parameters for Metropolis-Hastings Algorithm.
project.ppm Force Point Process Model to be Valid
plot.linnet Plot a linear network
distmap.ppp Distance Map of Point Pattern
lpp Create Point Pattern on Linear Network
pool Pool Data
coef.ppm Coefficients of Fitted Point Process Model
ppm Fit Point Process Model to Data
gorillas Gorilla Nesting Sites
invoke.symbolmap Plot Data Using Graphics Symbol Map
edges2triangles List Triangles in a Graph
clarkevans Clark and Evans Aggregation Index
spatstat.options Internal Options in Spatstat Package
pairdist.lpp Pairwise shortest-path distances between points on a linear network
rMosaicField Mosaic Random Field
is.subset.owin Determine Whether One Window is Contained In Another
plot.quadrattest Display the result of a quadrat counting test.
linearK Linear K Function
model.matrix.slrm Extract Design Matrix from Spatial Logistic Regression Model
nncross.lpp Nearest Neighbours on a Linear Network
mincontrast Method of Minimum Contrast
pcfdot Multitype pair correlation function (i-to-any)
plot.symbolmap Plot a Graphics Symbol Map
is.convex Test Whether a Window is Convex
hierpair.family Hierarchical Pairwise Interaction Process Family
pcfcross Multitype pair correlation function (cross-type)
ellipse Elliptical Window.
nnwhich.ppx Nearest Neighbours in Any Dimensions
as.hyperframe Convert Data to Hyperframe
quadrat.test.splitppp Dispersion Test of CSR for Split Point Pattern Based on Quadrat Counts
quadrats Divide Region into Quadrats
interp.colourmap Interpolate smoothly between specified colours
cut.ppp Classify Points in a Point Pattern
intensity.ppm Intensity of Fitted Point Process Model
psp Create a Line Segment Pattern
plot.linim Plot Pixel Image on Linear Network
model.depends Identify Covariates Involved in each Model Term
is.multitype Test whether Object is Multitype
envelope.pp3 Simulation Envelopes of Summary Function for 3D Point Pattern
plot.im Plot a Pixel Image
rescale Convert dataset to another unit of length
model.matrix.ppm Extract Design Matrix from Point Process Model
rlinegrid Generate grid of parallel lines with random displacement
npoints Number of Points in a Point Pattern
quad.object Class of Quadrature Schemes
print.psp Print Brief Details of a Line Segment Pattern Dataset
km.rs Kaplan-Meier and Reduced Sample Estimator using Histograms
methods.lppm Methods for Fitted Point Process Models on a Linear Network
plot.mppm plot a Fitted Multiple Point Process Model
project2segment Move Point To Nearest Line
markcorr Mark Correlation Function
hopskel Hopkins-Skellam Test
lansing Lansing Woods Point Pattern
interp.im Interpolate a Pixel Image
pcf.fv Pair Correlation Function obtained from K Function
pool.fv Pool Several Functions
plot.leverage.ppm Plot Leverage Function
pcf.fasp Pair Correlation Function obtained from array of K functions
plot.envelope Plot a Simulation Envelope
psp.object Class of Line Segment Patterns
lurking Lurking variable plot
owin.object Class owin
erosion Morphological Erosion
matclust.estK Fit the Matern Cluster Point Process by Minimum Contrast
nndist.pp3 Nearest neighbour distances in three dimensions
delaunay.distance Distance on Delaunay Triangulation
by.im Apply Function to Image Broken Down by Factor
methods.linfun Methods for Functions on Linear Network
plot.slrm Plot a Fitted Spatial Logistic Regression
summary.quad Summarizing a Quadrature Scheme
marks Marks of a Point Pattern
linearpcf Linear Pair Correlation Function
pcf.ppp Pair Correlation Function of Point Pattern
moribund Outdated Functions
methods.linnet Methods for Linear Networks
msr Signed or Vector-Valued Measure
plot.yardstick Plot a Yardstick or Scale Bar
harmonise Make Objects Compatible
plot.onearrow Plot an Arrow
opening Morphological Opening
clusterkernel Extract Cluster Offspring Kernel
logLik.mppm Log Likelihood for Poisson Point Process Model
integral.linim Integral on a Linear Network
pool.quadrattest Pool Several Quadrat Tests
pool.rat Pool Data from Several Ratio Objects
expand.owin Apply Expansion Rule
distmap.owin Distance Map of Window
rescale.psp Convert Line Segment Pattern to Another Unit of Length
plot.ppp plot a Spatial Point Pattern
betacells Beta Ganglion Cells in Cat Retina
plot.quad Plot a Spatial Quadrature Scheme
paracou Kimboto trees at Paracou, French Guiana
project2set Find Nearest Point in a Region
matchingdist Distance for a Point Pattern Matching
rMaternII Simulate Matern Model II
maxnndist Compute Minimum or Maximum Nearest-Neighbour Distance
range.fv Range of Function Values
nnclean Nearest Neighbour Clutter Removal
envelope Simulation Envelopes of Summary Function
linearmarkequal Mark Connection Function for Multitype Point Pattern on Linear Network
predict.ppm Prediction from a Fitted Point Process Model
rMatClust Simulate Matern Cluster Process
pixellate Convert Spatial Object to Pixel Image
dilation Morphological Dilation
quantess Quantile Tessellation
rgbim Create Colour-Valued Pixel Image
layout.boxes Generate a Row or Column Arrangement of Rectangles.
predict.slrm Predicted or Fitted Values from Spatial Logistic Regression
intensity.quadratcount Intensity Estimates Using Quadrat Counts
spruces Spruces Point Pattern
clusterset Allard-Fraley Estimator of Cluster Feature
dilated.areas Areas of Morphological Dilations
plot.psp plot a Spatial Line Segment Pattern
rmh Simulate point patterns using the Metropolis-Hastings algorithm.
closepairs Close Pairs of Points
pixellate.psp Convert Line Segment Pattern to Pixel Image
nnwhich.lpp Identify Nearest Neighbours on a Linear Network
nndist.lpp Nearest neighbour distances on a linear network
rmhmodel.list Define Point Process Model for Metropolis-Hastings Simulation.
rshift Random Shift
marktable Tabulate Marks in Neighbourhood of Every Point in a Point Pattern
rDGS Perfect Simulation of the Diggle-Gates-Stibbard Process
split.ppx Divide Multidimensional Point Pattern into Sub-patterns
rLGCP Simulate Log-Gaussian Cox Process
nnmark Mark of Nearest Neighbour
round.ppp Apply Numerical Rounding to Spatial Coordinates
fryplot Fry Plot of Point Pattern
concatxy Concatenate x,y Coordinate Vectors
collapse.fv Collapse Several Function Tables into One
shift.im Apply Vector Translation To Pixel Image
rGaussPoisson Simulate Gauss-Poisson Process
nnfun Nearest Neighbour Index Map as a Function
is.marked.ppm Test Whether A Point Process Model is Marked
qqplot.ppm Q-Q Plot of Residuals from Fitted Point Process Model
linearpcfdot Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
segregation.test Test of Spatial Segregation of Types
rMosaicSet Mosaic Random Set
plot.splitppp Plot a List of Point Patterns
rHardcore Perfect Simulation of the Hardcore Process
harmonic Basis for Harmonic Functions
rpoisline Generate Poisson Random Line Process
plot.solist Plot a List of Spatial Objects
nnmap K-th Nearest Point Map
plot.msr Plot a Signed or Vector-Valued Measure
simulate.kppm Simulate a Fitted Cluster Point Process Model
swedishpines Swedish Pines Point Pattern
scan.test Spatial Scan Test
pcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Type-i-To-Any-Type)
periodify Make Periodic Copies of a Spatial Pattern
pixellate.owin Convert Window to Pixel Image
pppdist Distance Between Two Point Patterns
reach Interaction Distance of a Point Process
rPoissonCluster Simulate Poisson Cluster Process
cauchy.estK Fit the Neyman-Scott cluster process with Cauchy kernel
bw.relrisk Cross Validated Bandwidth Selection for Relative Risk Estimation
F3est Empty Space Function of a Three-Dimensional Point Pattern
lengths.psp Lengths of Line Segments
methods.funxy Methods for Spatial Functions
default.dummy Generate a Default Pattern of Dummy Points
predict.mppm Prediction for Fitted Multiple Point Process Model
nearestsegment Find Line Segment Nearest to Each Point
nnwhich Nearest neighbour
ppp Create a Point Pattern
shift Apply Vector Translation
summary.im Summarizing a Pixel Image
print.ppp Print Brief Details of a Point Pattern Dataset
im Create a Pixel Image Object
methods.slrm Methods for Spatial Logistic Regression Models
simba Simulated data from a two-group experiment with replication within each group.
vertices Vertices of a Window
influence.ppm Influence Measure for Spatial Point Process Model
split.ppp Divide Point Pattern into Sub-patterns
spiders Spider Webs on Mortar Lines of a Brick Wall
lgcp.estpcf Fit a Log-Gaussian Cox Point Process by Minimum Contrast
Extract.im Extract Subset of Image
as.box3 Convert Data to Three-Dimensional Box
relrisk.ppp Nonparametric Estimate of Spatially-Varying Relative Risk
rmh.default Simulate Point Process Models using the Metropolis-Hastings Algorithm.
rotate.im Rotate a Pixel Image
plot.kppm Plot a fitted cluster point process
vcov.mppm Calculate Variance-Covariance Matrix for Fitted Multiple Point Process Model
quadratcount Quadrat counting for a point pattern
rcellnumber Generate Random Numbers of Points for Cell Process
summary.ppm Summarizing a Fitted Point Process Model
bronzefilter Bronze gradient filter data
print.owin Print Brief Details of a Spatial Window
linnet Create a Linear Network
ppm.object Class of Fitted Point Process Models
rNeymanScott Simulate Neyman-Scott Process
eroded.areas Areas of Morphological Erosions
rmpoispp Generate Multitype Poisson Point Pattern
quadrat.test.mppm Chi-Squared Test for Multiple Point Process Model Based on Quadrat Counts
multiplicity.ppp Count Multiplicity of Duplicate Points
edge.Ripley Ripley's Isotropic Edge Correction
quantile.im Sample Quantiles of Pixel Image
intersect.owin Intersection, Union or Set Subtraction of Two Windows
summary.owin Summary of a Spatial Window
unnormdensity Weighted kernel smoother
rho2hat Smoothed Relative Density of Pairs of Covariate Values
layerplotargs Extract or Replace the Plot Arguments of a Layered Object
crossdist Pairwise distances
plot.influence.ppm Plot Influence Measure
run.simplepanel Run Point-and-Click Interface
plot.pp3 Plot a Three-Dimensional Point Pattern
summary.anylist Summary of a List of Things
runifdisc Generate N Uniform Random Points in a Disc
K3est K-function of a Three-Dimensional Point Pattern
crossdist.ppp Pairwise distances between two different point patterns
spatstat-internal Internal spatstat functions
nndensity.ppp Estimate Intensity of Point Pattern Using Nearest Neighbour Distances
methods.units Methods for Units
predict.lppm Predict Point Process Model on Linear Network
whist Weighted Histogram
rmhexpand Specify Simulation Window or Expansion Rule
stratrand Stratified random point pattern
tilenames Names of Tiles in a Tessellation
superimpose.lpp Superimpose Several Point Patterns on Linear Network
runifpoint3 Generate N Uniform Random Points in Three Dimensions
distfun Distance Map as a Function
pairs.im Scatterplot Matrix for Pixel Images
sumouter Compute Quadratic Forms
update.rmhcontrol Update Control Parameters of Metropolis-Hastings Algorithm
square Square Window
rmpoint Generate N Random Multitype Points
plot.owin Plot a Spatial Window
pyramidal Pyramidal Neurons in Cingulate Cortex
is.hybrid Test Whether Object is a Hybrid
pppmatching Create a Point Matching
nnfun.lpp Nearest Neighbour Map on Linear Network
methods.ppx Methods for Multidimensional Space-Time Point Patterns
pool.anylist Pool Data from a List of Objects
quadratresample Resample a Point Pattern by Resampling Quadrats
rMaternI Simulate Matern Model I
trim.rectangle Cut margins from rectangle
textureplot Plot Image Using Texture Fill
nndist.ppx Nearest Neighbour Distances in Any Dimensions
update.symbolmap Update a Graphics Symbol Map.
scanpp Read Point Pattern From Data File
psstA Pseudoscore Diagnostic For Fitted Model against Area-Interaction Alternative
simplify.owin Approximate a Polygon by a Simpler Polygon
plot.tess Plot a tessellation
rshift.ppp Randomly Shift a Point Pattern
sessionLibs Print Names and Version Numbers of Libraries Loaded
stienen Stienen Diagram
scaletointerval Rescale Data to Lie Between Specified Limits
unmark Remove Marks
rpoisppOnLines Generate Poisson Point Pattern on Line Segments
simplepanel Simple Point-and-Click Interface Panels
print.im Print Brief Details of an Image
sharpen Data Sharpening of Point Pattern
pointsOnLines Place Points Evenly Along Specified Lines
shapley Galaxies in the Shapley Supercluster
tweak.colourmap Change Colour Values in a Colour Map
rknn Theoretical Distribution of Nearest Neighbour Distance
shift.owin Apply Vector Translation To Window
rshift.splitppp Randomly Shift a List of Point Patterns
texturemap Texture Map
plot.lppm Plot a Fitted Point Process Model on a Linear Network
with.hyperframe Evaluate an Expression in Each Row of a Hyperframe
hextess Hexagonal Grid or Tessellation
rotate.psp Rotate a Line Segment Pattern
bind.fv Combine Function Value Tables
rSSI Simulate Simple Sequential Inhibition
objsurf Objective Function Surface
AreaInter The Area Interaction Point Process Model
union.quad Union of Data and Dummy Points
summary.splitppp Summary of a Split Point Pattern
improve.kppm Improve Intensity Estimate of Fitted Cluster Point Process Model
rhohat Smoothing Estimate of Covariate Transformation
tess Create a Tessellation
relrisk Estimate of Spatially-Varying Relative Risk
suffstat Sufficient Statistic of Point Process Model
rpoisppx Generate Poisson Point Pattern in Any Dimensions
zapsmall.im Rounding of Pixel Values
scalardilate Apply Scalar Dilation
quasirandom Quasirandom Patterns
nndist.psp Nearest neighbour distances between line segments
vcov.slrm Variance-Covariance Matrix for a Fitted Spatial Logistic Regression
valid.ppm Check Whether Point Process Model is Valid
runiflpp Uniform Random Points on a Linear Network
rmhmodel.default Build Point Process Model for Metropolis-Hastings Simulation.
simplenet Simple Example of Linear Network
sporophores Sporophores Data
solist List of Two-Dimensional Spatial Objects
rshift.psp Randomly Shift a Line Segment Pattern
will.expand Test Expansion Rule
fitted.ppm Fitted Conditional Intensity for Point Process Model
solutionset Evaluate Logical Expression Involving Pixel Images and Return Region Where Expression is True
with.fv Evaluate an Expression in a Function Table
unique.ppp Extract Unique Points from a Spatial Point Pattern
padimage Pad the Border of a Pixel Image
yardstick Text, Arrow or Scale Bar in a Diagram
plot.scan.test Plot Result of Scan Test
rpoispp3 Generate Poisson Point Pattern in Three Dimensions
rmhmodel Define Point Process Model for Metropolis-Hastings Simulation.
spatialcdf Spatial Cumulative Distribution Function
urkiola Urkiola Woods Point Pattern
runifpoint Generate N Uniform Random Points
rVarGamma Simulate Neyman-Scott Point Process with Variance Gamma cluster kernel
subset.hyperframe Subset of Hyperframe Satisfying A Condition
as.linim Convert to Pixel Image on Linear Network
gridweights Compute Quadrature Weights Based on Grid Counts
rmh.ppm Simulate from a Fitted Point Process Model
rotate.owin Rotate a Window
setcov Set Covariance of a Window
simulate.lppm Simulate a Fitted Point Process Model on a Linear Network
reduced.sample Reduced Sample Estimator using Histogram Data
volume Volume of an Object
symbolmap Graphics Symbol Map
raster.x Cartesian Coordinates for a Pixel Raster
vesicles Vesicles Data
linearKcross.inhom Inhomogeneous multitype K Function (Cross-type) for Linear Point Pattern
transect.im Pixel Values Along a Transect
pcfmulti Marked pair correlation function
nearest.raster.point Find Pixel Nearest to a Given Point
reflect Reflect In Origin
selfcrossing.psp Crossing Points in a Line Segment Pattern
cut.im Convert Pixel Image from Numeric to Factor
split.hyperframe Divide Hyperframe Into Subsets and Reassemble
selfcut.psp Cut Line Segments Where They Intersect
thomas.estpcf Fit the Thomas Point Process by Minimum Contrast
plot.fv Plot Function Values
latest.news Print News About Latest Version of Package
rthin Random Thinning
summary.ppp Summary of a Point Pattern Dataset
print.ppm Print a Fitted Point Process Model
pairwise.family Pairwise Interaction Process Family
rounding Detect Numerical Rounding
runifpointOnLines Generate N Uniform Random Points On Line Segments
rQuasi Generate Quasirandom Point Pattern in Given Window
ippm Fit Point Process Model Involving Irregular Trend Parameters
kppm Fit Cluster or Cox Point Process Model
lineardisc Compute Disc of Given Radius in Linear Network
vcov.kppm Variance-Covariance Matrix for a Fitted Cluster Point Process Model
plot.layered Layered Plot
rotate.ppp Rotate a Point Pattern
superimpose Superimpose Several Geometric Patterns
spatstat-deprecated Deprecated spatstat functions
summary.psp Summary of a Line Segment Pattern Dataset
unitname Name for Unit of Length
rescue.rectangle Convert Window Back To Rectangle
redwoodfull California Redwoods Point Pattern (Entire Dataset)
rmhcontrol Set Control Parameters for Metropolis-Hastings Algorithm.
as.function.im Convert Pixel Image to Function of Coordinates
cdf.test.mppm Spatial Distribution Test for Multiple Point Process Model
redwood California Redwoods Point Pattern (Ripley's Subset)
is.stationary Recognise Stationary and Poisson Point Process Models
effectfun Compute Fitted Effect of a Spatial Covariate in a Point Process Model
rmhmodel.ppm Interpret Fitted Model for Metropolis-Hastings Simulation.
varblock Estimate Variance of Summary Statistic by Subdivision
summary.listof Summary of a List of Things
intersect.tess Intersection of Two Tessellations
rStrauss Perfect Simulation of the Strauss Process
ppm.ppp Fit Point Process Model to Point Pattern Data
bdist.points Distance to Boundary of Window
quadscheme Generate a Quadrature Scheme from a Point Pattern
rotate Rotate
vcov.ppm Variance-Covariance Matrix for a Fitted Point Process Model
crossdist.pp3 Pairwise distances between two different three-dimensional point patterns
gordon People in Gordon Square
waka Trees in Waka national park
plot.bermantest Plot Result of Berman Test
colourmap Colour Lookup Tables
plot.imlist Plot a List of Images
update.kppm Update a Fitted Cluster Point Process Model
quadrat.test Dispersion Test for Spatial Point Pattern Based on Quadrat Counts
japanesepines Japanese Pines Point Pattern
quad.ppm Extract Quadrature Scheme Used to Fit a Point Process Model
waterstriders Waterstriders data. Three independent replications of a point pattern formed by insects.
runifpointx Generate N Uniform Random Points in Any Dimensions
fitted.mppm Fitted Conditional Intensity for Multiple Point Process Model
rose Rose Diagram
plot.fasp Plot a Function Array
spokes Spokes pattern of dummy points
plot.quadratcount Plot Quadrat Counts
model.images Compute Images of Constructed Covariates
diameter.boxx Geometrical Calculations for Multi-Dimensional Box
pcf Pair Correlation Function
perimeter Perimeter Length of Window
ripras Estimate window from points alone
shift.psp Apply Vector Translation To Line Segment Pattern
linearKcross Multitype K Function (Cross-type) for Linear Point Pattern
lppm Fit Point Process Model to Point Pattern on Linear Network
Ginhom Inhomogeneous Nearest Neighbour Function
rpoispp Generate Poisson Point Pattern
vargamma.estpcf Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
methods.layered Methods for Layered Objects
boundingbox Bounding Box of a Window, Image, or Point Pattern
reload.or.compute Compute Unless Previously Saved
parres Partial Residuals for Point Process Model
psstG Pseudoscore Diagnostic For Fitted Model against Saturation Alternative
split.im Divide Image Into Sub-images
rpoislpp Poisson Point Process on a Linear Network
identify.ppp Identify Points in a Point Pattern
rat Ratio object
simulate.ppm Simulate a Fitted Gibbs Point Process Model
Gcom Model Compensator of Nearest Neighbour Function
methods.objsurf Methods for Objective Function Surfaces
murchison Murchison gold deposits
affine.owin Apply Affine Transformation To Window
plot.textstring Plot a Text String
hyperframe Hyper Data Frame
as.layered Convert Data To Layered Object
rDiggleGratton Perfect Simulation of the Diggle-Gratton Process
rlabel Random Re-Labelling of Point Pattern
simdat Simulated Point Pattern
inforder.family Infinite Order Interaction Family
solapply Apply a Function Over a List and Obtain a List of Objects
is.lpp Test Whether An Object Is A Point Pattern on a Linear Network
linearKdot Multitype K Function (Dot-type) for Linear Point Pattern
plot.colourmap Plot a Colour Map
methods.box3 Methods for Three-Dimensional Box
rStraussHard Perfect Simulation of the Strauss-Hardcore Process
plot.plotppm Plot a plotppm Object Created by plot.ppm
rmhstart Determine Initial State for Metropolis-Hastings Simulation.
vargamma.estK Fit the Neyman-Scott Cluster Point Process with Variance Gamma kernel
stieltjes Compute Integral of Function Against Cumulative Distribution
triplet.family Triplet Interaction Family
subfits Extract List of Individual Point Process Models
simulate.slrm Simulate a Fitted Spatial Logistic Regression Model
subset.ppp Subset of Point Pattern Satisfying A Condition
model.frame.ppm Extract the Variables in a Point Process Model
adaptive.density Intensity Estimate of Point Pattern Using Tessellation
dfbetas.ppm Parameter influence measure
discs Union of Discs
Kmodel.kppm K Function or Pair Correlation Function of Cluster Model or Cox model
pairdist.default Pairwise distances
DiggleGatesStibbard Diggle-Gates-Stibbard Point Process Model
Ldot Multitype L-function (i-to-any)
Kdot.inhom Inhomogeneous Multitype K Dot Function
default.expand Default Expansion Rule for Simulation of Model
boxx Multi-Dimensional Box
crossdist.psp Pairwise distances between two different line segment patterns
duplicated.ppp Determine Duplicated Points in a Spatial Point Pattern
delaunay.network Linear Network of Delaunay Triangulation or Dirichlet Tessellation
Gest Nearest Neighbour Distance Function G
Hybrid Hybrid Interaction Point Process Model
diameter.linnet Circumradius and Diameter of a Linear Network
delaunay Delaunay Triangulation of Point Pattern
Kest.fft K-function using FFT
Hest Spherical Contact Distribution Function
eval.linim Evaluate Expression Involving Pixel Images on Linear Network
istat Point and Click Interface for Exploratory Analysis of Point Pattern
append.psp Combine Two Line Segment Patterns
compatible.fasp Test Whether Function Arrays Are Compatible
methods.kppm Methods for Cluster Point Process Models
intensity Intensity of a Dataset or a Model
Extract.influence.ppm Extract Subset of Influence Object
Gres Residual G Function
affine Apply Affine Transformation
berman.test Berman's Tests for Point Process Model
linfun Function on a Linear Network
fitin.ppm Extract the Interaction from a Fitted Point Process Model
bw.stoyan Stoyan's Rule of Thumb for Bandwidth Selection
methods.rho2hat Methods for Intensity Functions of Two Spatial Covariates
letterR Window in Shape of Letter R
logLik.ppm Log Likelihood and AIC for Point Process Model
blur Apply Gaussian Blur to a Pixel Image
density.splitppp Kernel Smoothed Intensity of Split Point Pattern
colourtools Convert and Compare Colours in Different Formats
pixellate.ppp Convert Point Pattern to Pixel Image
integral.im Integral of a Pixel Image
hyytiala Scots pines and other trees at Hyytiala
humberside Humberside Data on Childhood Leukaemia and Lymphoma
fitted.slrm Fitted Probabilities for Spatial Logistic Regression
dendrite Dendritic Spines Data
as.ppm Extract Fitted Point Process Model
imcov Spatial Covariance of a Pixel Image
lohboot Bootstrap Confidence Bands for Summary Function
nestsplit Nested Split
nztrees New Zealand Trees Point Pattern
ppp.object Class of Point Patterns
pairdist Pairwise distances
quadscheme.logi Generate a Logistic Regression Quadrature Scheme from a Point Pattern
slrm Spatial Logistic Regression
plot.texturemap Plot a Texture Map
owin Create a Window
residuals.mppm Residuals for Point Process Model Fitted to Multiple Point Patterns
rcell Simulate Baddeley-Silverman Cell Process
linim Create Pixel Image on Linear Network
relrisk.ppm Parametric Estimate of Spatially-Varying Relative Risk
rThomas Simulate Thomas Process
rpoislinetess Poisson Line Tessellation
spatstat-package The Spatstat Package
sidelengths.owin Side Lengths of Enclosing Rectangle of a Window
tiles Extract List of Tiles in a Tessellation
update.ppm Update a Fitted Point Process Model
rescale.im Convert Pixel Image to Another Unit of Length
Smooth.msr Smooth a Signed or Vector-Valued Measure
ord.family Ord Interaction Process Family
thomas.estK Fit the Thomas Point Process by Minimum Contrast
methods.boxx Methods for Multi-Dimensional Box
add.texture Fill Plot With Texture
Strauss The Strauss Point Process Model
alltypes Calculate Summary Statistic for All Types in a Multitype Point Pattern
compareFit Residual Diagnostics for Multiple Fitted Models
as.solist Convert List of Two-Dimensional Spatial Objects
as.lpp Convert Data to a Point Pattern on a Linear Network
chicago Chicago Street Crime Data
clickbox Interactively Define a Rectangle
envelope.lpp Envelope for Point Patterns on Linear Network
dummy.ppm Extract Dummy Points Used to Fit a Point Process Model
distfun.lpp Distance Map on Linear Network
Kmodel K Function or Pair Correlation Function of a Point Process Model
flu Influenza Virus Proteins
ewcdf Weighted Empirical Cumulative Distribution Function
chorley Chorley-Ribble Cancer Data
methods.fii Methods for Fitted Interactions
localKinhom Inhomogeneous Neighbourhood Density Function
pairdist.ppx Pairwise Distances in Any Dimensions
pixelcentres Extract Pixel Centres as Point Pattern
box3 Three-Dimensional Box
plot.hyperframe Plot Entries in a Hyperframe
linearpcfcross Multitype Pair Correlation Function (Cross-type) for Linear Point Pattern
ppx Multidimensional Space-Time Point Pattern
nncross Nearest Neighbours Between Two Patterns
rescale.owin Convert Window to Another Unit of Length
mppm Fit Point Process Model to Several Point Patterns
plot.cdftest Plot a Spatial Distribution Test
shift.ppp Apply Vector Translation To Point Pattern
pool.fasp Pool Data from Several Function Arrays
localK Neighbourhood density function
Extract.layered Extract or Replace Subset of a Layered Object
Gmulti Marked Nearest Neighbour Distance Function
Softcore The Soft Core Point Process Model
Extract.listof Extract or Replace Subset of a List of Things
Extract.owin Extract Subset of Window
integral.msr Integral of a Measure
contour.imlist Array of Contour Plots
linearmarkconnect Mark Connection Function for Multitype Point Pattern on Linear Network
predict.kppm Prediction from a Fitted Cluster Point Process Model
pp3 Three Dimensional Point Pattern
pcf3est Pair Correlation Function of a Three-Dimensional Point Pattern
print.quad Print a Quadrature Scheme
timed Record the Computation Time
rpoint Generate N Random Points
tile.areas Compute Areas of Tiles in a Tessellation
rotmean Rotational Average of a Pixel Image
summary.solist Summary of a List of Spatial Objects
rsyst Simulate systematic random point pattern
residuals.ppm Residuals for Fitted Point Process Model
rjitter Random Perturbation of a Point Pattern
quantile.ewcdf Quantiles of Weighted Empirical Cumulative Distribution Function
pairsat.family Saturated Pairwise Interaction Point Process Family
addvar Added Variable Plot for Point Process Model
crossing.psp Crossing Points of Two Line Segment Patterns
psst Pseudoscore Diagnostic For Fitted Model against General Alternative
rstrat Simulate Stratified Random Point Pattern
rCauchy Simulate Neyman-Scott Point Process with Cauchy cluster kernel
linearpcfdot.inhom Inhomogeneous Multitype Pair Correlation Function (Dot-type) for Linear Point Pattern
nsegments Number of Line Segments in a Line Segment Pattern
is.multitype.ppm Test Whether A Point Process Model is Multitype
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Nickname Ides of March
Date 2015-02-27
License GPL (>= 2)
URL http://www.spatstat.org
LazyData true
NeedsCompilation yes
ByteCompile true
Packaged 2015-02-27 00:43:10 UTC; adrian
Repository CRAN
Date/Publication 2015-02-27 07:32:22

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